HEADER CELL ADHESION 30-NOV-11 2LME TITLE SOLID-STATE NMR STRUCTURE OF THE MEMBRANE ANCHOR DOMAIN OF THE TITLE 2 TRIMERIC AUTOTRANSPORTER YADA COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADHESIN YADA; COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: OUTER MEMBRANE REGION, RESIDUES 333-422; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: YERSINIA ENTEROCOLITICA SUBSP. ENTEROCOLITICA; SOURCE 3 ORGANISM_TAXID: 393305; SOURCE 4 STRAIN: 8081; SOURCE 5 GENE: YADA, YEP0066; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 OMP8; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PUC-A-1 KEYWDS TRIMERIC AUTOTRANSPORTER, MEMBRANE PROTEIN, CELL ADHESION EXPDTA SOLID-STATE NMR NUMMDL 20 AUTHOR S.A.SHAHID,B.BARDIAUX,W.T.FRANKS,M.HABECK,D.LINKE,B.VAN ROSSUM REVDAT 4 15-MAY-24 2LME 1 REMARK REVDAT 3 14-JUN-23 2LME 1 REMARK SEQADV REVDAT 2 26-DEC-12 2LME 1 JRNL REVDAT 1 07-NOV-12 2LME 0 JRNL AUTH S.A.SHAHID,B.BARDIAUX,W.T.FRANKS,L.KRABBEN,M.HABECK, JRNL AUTH 2 B.J.VAN ROSSUM,D.LINKE JRNL TITL MEMBRANE-PROTEIN STRUCTURE DETERMINATION BY SOLID-STATE NMR JRNL TITL 2 SPECTROSCOPY OF MICROCRYSTALS. JRNL REF NAT.METHODS V. 9 1212 2012 JRNL REFN ISSN 1548-7091 JRNL PMID 23142870 JRNL DOI 10.1038/NMETH.2248 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SPARKY 3.113, ISD REMARK 3 AUTHORS : GODDARD (SPARKY), RIEPING, HABECK AND NILGES (ISD) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURES WERE DETERMINED USING A REMARK 3 COMBINATION OF REPLICA-EXCHANGE MONTE CARLO AND BAYESIAN REMARK 3 INFERENCE USING THE INFERENTIAL STRUCTURE DETERMINATION PROGRAM REMARK 3 (ISD) REMARK 4 REMARK 4 2LME COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-DEC-11. REMARK 100 THE DEPOSITION ID IS D_1000102560. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 275 REMARK 210 PH : 7 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 11.5 M [U-13C; U-15N] YADA REMARK 210 MEMBRANE ANCHOR DOMAIN REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 13C-13C DARR 25 MS; 2D 13C REMARK 210 -13C DARR 50 MS; 2D 13C-13C DARR REMARK 210 100 MS; 2D 13C-13C DARR-CP- 15 REMARK 210 MS; 2D 13C-13C DARR-CP- 40 MS; REMARK 210 2D 13C-13C DARR-CP- 70 MS; 2D REMARK 210 13C-13C PDSD 15 MS; 2D 13C-13C REMARK 210 PDSD 100 MS; 2D 1H-13C INEPT; 2D REMARK 210 13C-13C DREAM 1.5 MS; 2D 13C-13C REMARK 210 DREAM AB; 2D 13C-13C DREAM BG; REMARK 210 2D 13C-13C ME-ONLY 70 MS; 2D 13C- REMARK 210 13C REDOR 1 MS; 2D 15N-13C NCA; REMARK 210 2D 15N-13C NCO; 2D NCACX; 2D REMARK 210 NCOCX; 3D NCACX 25 MS; 3D NCOCX REMARK 210 25 MS; 3D NCACX 100 MS; 3D NCACX REMARK 210 200 MS; 3D NCOCX 200 MS; 3D REMARK 210 NCACX 500 MS; 3D NCACB 3 MS; 2D REMARK 210 13C-13C CPPI-DARR-DD; 2D 13C-13C REMARK 210 PAR; 2D 15N-13C TEDOR; 2D 13C- REMARK 210 13C CHHC; 2D 15N-13C NHHC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 700 MHZ; 900 MHZ; 850 REMARK 210 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TALOS+, ISD REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 400 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : HIGHEST POSTERIOR PROBABILITY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 217 REMARK 217 SOLID STATE NMR STUDY REMARK 217 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLID REMARK 217 STATE NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 217 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 217 THESE RECORDS ARE MEANINGLESS. REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O TRP A 105 HG13 VAL C 54 1.39 REMARK 500 HG13 VAL B 54 O TRP C 105 1.39 REMARK 500 HG13 VAL A 54 O TRP B 105 1.39 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 1 ASP A 2 -99.63 37.66 REMARK 500 1 ALA A 4 -59.21 178.77 REMARK 500 1 TRP A 6 -84.74 -52.63 REMARK 500 1 GLN A 10 -54.80 -128.02 REMARK 500 1 PHE A 11 -155.35 -125.22 REMARK 500 1 LYS A 13 12.17 -140.82 REMARK 500 1 PHE A 46 1.18 -169.10 REMARK 500 1 GLN A 47 116.38 63.90 REMARK 500 1 TYR A 49 -173.63 68.83 REMARK 500 1 ARG A 64 -83.98 65.72 REMARK 500 1 SER A 65 34.96 -152.25 REMARK 500 1 ASN A 78 -177.29 64.67 REMARK 500 1 SER A 92 -53.68 -131.39 REMARK 500 1 ALA A 99 96.45 -171.60 REMARK 500 1 ASP B 2 -99.60 37.52 REMARK 500 1 ALA B 4 -59.13 178.83 REMARK 500 1 TRP B 6 -84.79 -52.63 REMARK 500 1 GLN B 10 -54.88 -127.99 REMARK 500 1 PHE B 11 -155.41 -125.24 REMARK 500 1 LYS B 13 12.10 -140.81 REMARK 500 1 PHE B 46 1.18 -169.11 REMARK 500 1 GLN B 47 116.39 63.97 REMARK 500 1 TYR B 49 -173.65 68.84 REMARK 500 1 ARG B 64 -83.93 65.52 REMARK 500 1 SER B 65 34.84 -152.23 REMARK 500 1 ASN B 78 -177.25 64.60 REMARK 500 1 SER B 92 -53.65 -131.30 REMARK 500 1 ALA B 99 96.51 -171.59 REMARK 500 1 ASP C 2 -99.66 37.66 REMARK 500 1 ALA C 4 -59.18 178.81 REMARK 500 1 TRP C 6 -84.74 -52.63 REMARK 500 1 GLN C 10 -54.79 -127.97 REMARK 500 1 PHE C 11 -155.37 -125.32 REMARK 500 1 LYS C 13 12.11 -140.87 REMARK 500 1 PHE C 46 1.07 -169.08 REMARK 500 1 GLN C 47 116.40 63.99 REMARK 500 1 TYR C 49 -173.61 68.90 REMARK 500 1 ARG C 64 -83.95 65.58 REMARK 500 1 SER C 65 34.87 -152.22 REMARK 500 1 ASN C 78 -177.20 64.58 REMARK 500 1 SER C 92 -53.72 -131.33 REMARK 500 1 ALA C 99 96.51 -171.60 REMARK 500 2 ASP A 2 -103.57 40.69 REMARK 500 2 ALA A 4 -63.05 -177.32 REMARK 500 2 TRP A 6 -86.35 -48.43 REMARK 500 2 GLN A 10 -55.66 -128.14 REMARK 500 2 PHE A 11 -153.52 -125.66 REMARK 500 2 PHE A 46 -3.52 -165.34 REMARK 500 2 GLN A 47 117.55 64.27 REMARK 500 2 TYR A 49 -167.19 67.61 REMARK 500 REMARK 500 THIS ENTRY HAS 861 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 18108 RELATED DB: BMRB DBREF 2LME A 16 105 UNP A1JUB7 YADA_YERE8 333 422 DBREF 2LME B 16 105 UNP A1JUB7 YADA_YERE8 333 422 DBREF 2LME C 16 105 UNP A1JUB7 YADA_YERE8 333 422 SEQADV 2LME GLY A 1 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME ASP A 2 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME GLN A 3 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME ALA A 4 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME SER A 5 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME TRP A 6 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME SER A 7 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME HIS A 8 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME PRO A 9 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME GLN A 10 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME PHE A 11 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME GLU A 12 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME LYS A 13 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME GLY A 14 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME ALA A 15 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME GLY B 1 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME ASP B 2 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME GLN B 3 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME ALA B 4 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME SER B 5 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME TRP B 6 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME SER B 7 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME HIS B 8 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME PRO B 9 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME GLN B 10 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME PHE B 11 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME GLU B 12 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME LYS B 13 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME GLY B 14 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME ALA B 15 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME GLY C 1 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME ASP C 2 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME GLN C 3 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME ALA C 4 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME SER C 5 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME TRP C 6 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME SER C 7 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME HIS C 8 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME PRO C 9 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME GLN C 10 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME PHE C 11 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME GLU C 12 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME LYS C 13 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME GLY C 14 UNP A1JUB7 EXPRESSION TAG SEQADV 2LME ALA C 15 UNP A1JUB7 EXPRESSION TAG SEQRES 1 A 105 GLY ASP GLN ALA SER TRP SER HIS PRO GLN PHE GLU LYS SEQRES 2 A 105 GLY ALA HIS LYS PHE ARG GLN LEU ASP ASN ARG LEU ASP SEQRES 3 A 105 LYS LEU ASP THR ARG VAL ASP LYS GLY LEU ALA SER SER SEQRES 4 A 105 ALA ALA LEU ASN SER LEU PHE GLN PRO TYR GLY VAL GLY SEQRES 5 A 105 LYS VAL ASN PHE THR ALA GLY VAL GLY GLY TYR ARG SER SEQRES 6 A 105 SER GLN ALA LEU ALA ILE GLY SER GLY TYR ARG VAL ASN SEQRES 7 A 105 GLU SER VAL ALA LEU LYS ALA GLY VAL ALA TYR ALA GLY SEQRES 8 A 105 SER SER ASP VAL MET TYR ASN ALA SER PHE ASN ILE GLU SEQRES 9 A 105 TRP SEQRES 1 B 105 GLY ASP GLN ALA SER TRP SER HIS PRO GLN PHE GLU LYS SEQRES 2 B 105 GLY ALA HIS LYS PHE ARG GLN LEU ASP ASN ARG LEU ASP SEQRES 3 B 105 LYS LEU ASP THR ARG VAL ASP LYS GLY LEU ALA SER SER SEQRES 4 B 105 ALA ALA LEU ASN SER LEU PHE GLN PRO TYR GLY VAL GLY SEQRES 5 B 105 LYS VAL ASN PHE THR ALA GLY VAL GLY GLY TYR ARG SER SEQRES 6 B 105 SER GLN ALA LEU ALA ILE GLY SER GLY TYR ARG VAL ASN SEQRES 7 B 105 GLU SER VAL ALA LEU LYS ALA GLY VAL ALA TYR ALA GLY SEQRES 8 B 105 SER SER ASP VAL MET TYR ASN ALA SER PHE ASN ILE GLU SEQRES 9 B 105 TRP SEQRES 1 C 105 GLY ASP GLN ALA SER TRP SER HIS PRO GLN PHE GLU LYS SEQRES 2 C 105 GLY ALA HIS LYS PHE ARG GLN LEU ASP ASN ARG LEU ASP SEQRES 3 C 105 LYS LEU ASP THR ARG VAL ASP LYS GLY LEU ALA SER SER SEQRES 4 C 105 ALA ALA LEU ASN SER LEU PHE GLN PRO TYR GLY VAL GLY SEQRES 5 C 105 LYS VAL ASN PHE THR ALA GLY VAL GLY GLY TYR ARG SER SEQRES 6 C 105 SER GLN ALA LEU ALA ILE GLY SER GLY TYR ARG VAL ASN SEQRES 7 C 105 GLU SER VAL ALA LEU LYS ALA GLY VAL ALA TYR ALA GLY SEQRES 8 C 105 SER SER ASP VAL MET TYR ASN ALA SER PHE ASN ILE GLU SEQRES 9 C 105 TRP HELIX 1 1 LYS A 13 SER A 44 1 32 HELIX 2 2 LYS B 13 SER B 44 1 32 HELIX 3 3 LYS C 13 SER C 44 1 32 SHEET 1 A13 GLY A 52 TYR A 63 0 SHEET 2 A13 SER A 66 VAL A 77 -1 O GLY A 74 N ASN A 55 SHEET 3 A13 LYS A 84 ALA A 90 -1 O VAL A 87 N ILE A 71 SHEET 4 A13 ASP A 94 TRP A 105 -1 O ASN A 98 N GLY A 86 SHEET 5 A13 GLY C 52 TYR C 63 -1 O ALA C 58 N PHE A 101 SHEET 6 A13 SER C 66 VAL C 77 -1 O GLY C 74 N ASN C 55 SHEET 7 A13 LYS C 84 ALA C 90 -1 O VAL C 87 N ILE C 71 SHEET 8 A13 ASP C 94 TRP C 105 -1 O ASN C 98 N GLY C 86 SHEET 9 A13 GLY B 52 TYR B 63 -1 N ALA B 58 O PHE C 101 SHEET 10 A13 SER B 66 VAL B 77 -1 O GLY B 74 N ASN B 55 SHEET 11 A13 LYS B 84 ALA B 90 -1 O VAL B 87 N ILE B 71 SHEET 12 A13 ASP B 94 TRP B 105 -1 O ASN B 98 N GLY B 86 SHEET 13 A13 GLY A 52 TYR A 63 -1 N ALA A 58 O PHE B 101 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1